BLAST searches
Genome sequence of the squalene-degrading bacterium Corynebacterium terpenotabidum type strain Y-11T (= DSM 44721T)
... For annotation, BLAST searches against the NCBI Protein Clusters Database [35] are per- formed and the annotation is enriched by searches against the Conserved Domain Database [36] and[r] ...
9
Genome sequence of the marine bacterium Corynebacterium maris type strain Coryn-1T (= DSM 45190T)
... annotation, BLAST searches against the NCBI Protein Clusters Database [35] are per- formed and the annotation is enriched by searches against the Conserved Domain Database [36] and subsequent ...
9
A unique genetic code change in the mitochondrial genome of the parasitic nematode Radopholus similis
... Annotation and nucleotide composition analysis Combinations of BLAST searches and ClustalW alignments to other nematode mt genes collected using MitoBank2.1 [24] were used to detect prot[r] ...
10
Incidence of Acinetobacter Species Other than A baumannii among Clinical Isolates of Acinetobacter: Evidence for Emerging Species
... by BLAST searches and according to which species they clustered most closely with; as more isolates were added to the database, a measure of the extent of sequence diversity associated with each species was ...
5
Establishing a reference array for the CS αβ superfamily of defensive peptides
... previous BLAST searches of invertebrate taxa per- formed in this lab, published analyses, and reviews of scor- pion toxins [87], nematode CS-αβ sequences [90], plant defensins [91], fungal ...
16
Curated BLAST for Genomes
... Curated BLAST searches against the six-frame translation of the ...Curated BLAST first searches against the predicted proteins and shows those ...Curated BLAST reports any hits to the ...
7
Reptilian-transcriptome v1.0, a glimpse in the brain transcriptome of five divergent Sauropsida lineages and the phylogenetic position of turtles
... (i) BLAST-aligning multiple sequences against selected databases with different parameters (Figure 1a) and (ii) automatically building consensus sequences (Figure 1b and ...using BLAST, together with the ...
19
Metal contamination and methane oxidising bacteria around a formerly industrialised suburban river
... Various BLAST searches were performed with the available genome sequences of the Methylomonas genus with the chromium reductases enzymes and other proteins that could possibly be involve[r] ...
151
CABRA: Cluster and Annotate Blast Results Algorithm
... The most extended way to functionally annotate a sequence is using basic local alignment search tool (BLAST) searches [1] and the orthology information drawn from them. These are usually carried out in web ...
6
Dramatic down-regulation of oxidoreductases in human hepatocellular carcinoma hepG2 cells: proteomics and gene ontology unveiling new frontiers in cancer enzymology
... b) Mapping: The mapping algorithm uses the parameters of the Blast Table to search various databases to identify and retrieve Gene Ontologies (GO) associated with the hits obtained from NCBI BLAST ...
21
Comparison between relational database and XML in querying motif sequence
... After get the result of motif sequence scientist need to used BLAST ( http://www.ncbi.nlm.nih.gov/BLAST/ ) searches for homology between DNA or protein sequences but in this case scien[r] ...
19
Genome wide identification and transcriptional profiling analysis of auxin response related gene families in cucumber
... To identify all auxin response genes in cucumber, BLAST searches on the cucumber genome database were performed using the published peptide sequences of ARF, AUX/IAA, GH3, SAUR, and LBD [r] ...
13
CREST - a large and diverse superfamily of putative transmembrane hydrolases
... similarity searches, we used HHpred, a profile-profile- based method similar to COMPASS, but with the pre- dicted secondary structure in its scoring to obtain better ...PSI-BLAST searches were still ...
17
SEQUENCE ANALYSIS OF XYLANASE USING BASIC INSILICO TOOLS
... protein BLAST algorithms like BLASTp, searches for similarity between protein query and protein database, PSI-BLAST performs position specific search iteratively, PHI-BLAST searches for ...
6
Exotic searches at NA62
... Abstract. The NA62 Experiment, thanks to the high intensity proton beam provided by the SPS, is a suitable apparatus to search for Beyond Standard Model (BSM) scenarios feebly coupled to SM, manifesting itself at the ...
5
Diphoton searches (CMS)
... cay, among others, into diphotons. In 2015, the ATLAS and CMS collaborations could explore a new energy range using proton-proton collisions at a center-of-mass energy of √ s = 13 TeV. Both collabo- rations presented ...
12
BLAST-QC: automated analysis of BLAST results
... gies. BLAST has been the preferred utility for sequence alignment and identification in bioinformatics and genom- ics research and workflows for almost 30 years ...NCBI BLAST is interpreting the huge amount ...
8
Semantic Searches
... ESI searches begins at the “dawn of the information age,” 37 with United States ...in searches of intermingled records, it was unavoidable (and therefore permissible) to examine “some innocuous documents ...
43
SUSY Searches at ATLAS
... ino not much heavier than about 1.5 TeV to keep the stop light (the stop receives radiative corrections from loops like ˜t → gt ˜ → ˜t), and electroweak gauginos below the TeV scale [9]. There are no strong constraints ...
6
Safety Distances for Explosive Storage Magazines and Process Buildings
... to blast effects in the high pressure range can, in certain cases, be designed for the impulse rather than the peak pressure associated with longer duration blast pressures ...
11